Bioconductor Background correction

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agilent single channel plotMA background correction

updated 5.5 years ago by Gordon Smyth 49k • written 5.5 years ago by CantExitVIM ▴ 10

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2.0k

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normalization background correction

updated 6.4 years ago by DataFanatic ▴ 10 • written 8.5 years ago by dimitri.leonid.lindenwald ▴ 50

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1.2k

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agilent microarrays background correction

updated 6.9 years ago by Gordon Smyth 49k • written 6.9 years ago by ragavendrasamy.b • 0

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3.6k

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limma agilent offset background correction microarray

updated 7.9 years ago by James W. MacDonald 64k • written 7.9 years ago by Konstantinos Yeles ▴ 80

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977

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gcrma normalization background correction microarray

8.1 years ago svlachavas ▴ 820

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2.3k

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illumina human ht-12 v4 limma background correction BeadStudio microarray

updated 8.1 years ago by Gordon Smyth 49k • written 8.1 years ago by svlachavas ▴ 820

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819

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Normalization background correction

updated 8.7 years ago by Gordon Smyth 49k • written 16.2 years ago by Bandyopadhyay, Somnath Som ▴ 60

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Answer: Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DE by James W. MacDonald 64k

The short answer is that you don't. `tximport` is meant to summarize transcript abundance estimates at the gene level, and as you might ima…

Comment: Inconsistent results in DiffBind by ATpoint ★ 3.6k

One is the "raw" logFCs, not corrected for the standard error of the logFCs, the other one the shrunken logFCs from DESeq2 lfcShrink, "corr…

Answer: Can't download Bioconductor by James W. MacDonald 64k

[You need to update][1]. [1]: https://cran.r-project.org/web/packages/BiocManager/vignettes/BiocManager.html#basic-use

Comment: Can't download Bioconductor by ATpoint ★ 3.6k

Please see especially the 1st and 2nd point in https://www.bioconductor.org/help/support/posting-guide/#keypoints

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by Michael Love 41k

With 3 vs 3, when one sample increases from 50 to 5000, this can lead to rejection of null hypothesis. I'm not surprised with the above cou…

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Answer: biomaRt not working - lazy table error

Answer: Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DE

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance

Answer: What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)

Answer: WGCNA documentation not available

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